Locus 2536

Sequence ID dm3.chr2L
Location 19,825,859 – 19,825,953
Length 94
Max. P 0.896023
window3489 window3490

overview

Window 9

Location 19,825,859 – 19,825,953
Length 94
Sequences 8
Columns 102
Reading direction forward
Mean pairwise identity 73.09
Shannon entropy 0.51821
G+C content 0.50125
Mean single sequence MFE -31.53
Consensus MFE -8.66
Energy contribution -9.56
Covariance contribution 0.91
Combinations/Pair 1.29
Mean z-score -2.74
Structure conservation index 0.27
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.70
SVM RNA-class probability 0.791467
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 19825859 94 + 23011544
-----AGGCACAGACACCGGCAGAGAAACUCCACUUAACUGGAGUAACUU-CUUUCGCCUCUGCCACCUGCAGC--CUGCCAUUUCCGGAAACGGAAGUAGC
-----.((((........(((((((((((((((......))))))...))-)))).))).((((.....)))).--.))))(((((((....)))))))... ( -37.30, z-score =  -4.39, R)
>droAna3.scaffold_12916 7192754 86 - 16180835
-----GUACACAGGCACUGGGCAGAAAACUCCACUUAAGUGGAGUAACUU-CUUUC--UUCUGCCACCUGCAAC--CGA----UUCC--AAACGAGAGGAGC
-----........(((...(((((((.(((((((....))))))).....-.....--)))))))...)))...--...----((((--........)))). ( -25.70, z-score =  -1.99, R)
>droPer1.super_10 420799 102 - 3432795
CGACAUCGAGCAGGCGUUGGAGCAAGAACUCCACUUAAAUAAAGUAACUUUCUUUCUGUUAUUUUUCCUUUUUUUUUGGCUACCUGCAAAAAGCGGAGAAGC
........((((((....((((......))))((((.....)))).........)))))).(((((((.((((((...((.....)))))))).))))))). ( -19.40, z-score =   0.73, R)
>dp4.chr4_group4 2596166 100 - 6586962
CGACAUCGAGCAGGCGUUGGAGGAAGAACUCCACUUAAAUAAAGUAACUUUCUUUCUUUUAUUUUUCCUUUUUU--UGGCUACCUGCAAAAAGCGGAGAAGC
((((..(.....)..))))(((((((((....((((.....))))....)))))))))...(((((((.(((((--((.(.....)))))))).))))))). ( -22.90, z-score =  -0.47, R)
>droSim1.chr2L 19485460 94 + 22036055
-----AGGCACAGACACCGGCAGAGAAACUCCACUUAACUGGAGUAACUU-CUUUCGCCUCUGCCACCUGCAGC--CUGCCAUUUCCGGAAACGGAAGUAGC
-----.((((........(((((((((((((((......))))))...))-)))).))).((((.....)))).--.))))(((((((....)))))))... ( -37.30, z-score =  -4.39, R)
>droSec1.super_7 3431234 94 + 3727775
-----AGGCACAGACACCGGCAGAGAAACUCCACUUAACUGGAGUAACUU-CUUUCGCCUCUGCCACCUGCAGC--CUGCCAUUUCCGGAAACGGAAGUAGC
-----.((((........(((((((((((((((......))))))...))-)))).))).((((.....)))).--.))))(((((((....)))))))... ( -37.30, z-score =  -4.39, R)
>droYak2.chr2R 6294937 94 + 21139217
-----AGGCACAGACACUGGCAGAGAAACUCCACUUAACUGGAGUAACUU-CUUUCGCUUCUGCCACCUGCAGC--CAGCCAUUUCCGGAAACGGAAGUAGC
-----.(((.(((....((((((((((((((((......)))))).....-..)))...))))))).)))..))--).((.(((((((....))))))).)) ( -36.31, z-score =  -4.09, R)
>droEre2.scaffold_4845 18090665 93 - 22589142
------AGGGCAGGCACCGGCAGAGAAACUCCACUUAACUGGAGUAACUU-CUUUCGCUUCUGCCACCUGCAGC--CAGCCAUUUCCGGAAACGGAAGCAGC
------..((((((....(((((((((((((((......))))))...))-)))).)))))))))..((((.(.--...)...(((((....))))))))). ( -36.00, z-score =  -2.92, R)
>consensus
_____AGGCACAGACACCGGCAGAGAAACUCCACUUAACUGGAGUAACUU_CUUUCGCUUCUGCCACCUGCAGC__CGGCCAUUUCCGGAAACGGAAGUAGC
................((((.......((((((......))))))...............((((.....))))............))))............. ( -8.66 =  -9.56 +   0.91)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,825,859 – 19,825,953
Length 94
Sequences 8
Columns 102
Reading direction reverse
Mean pairwise identity 73.09
Shannon entropy 0.51821
G+C content 0.50125
Mean single sequence MFE -34.71
Consensus MFE -11.84
Energy contribution -12.44
Covariance contribution 0.60
Combinations/Pair 1.52
Mean z-score -2.54
Structure conservation index 0.34
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.13
SVM RNA-class probability 0.896023
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 19825859 94 - 23011544
GCUACUUCCGUUUCCGGAAAUGGCAG--GCUGCAGGUGGCAGAGGCGAAAG-AAGUUACUCCAGUUAAGUGGAGUUUCUCUGCCGGUGUCUGUGCCU-----
((((.(((((....))))).))))((--((.(((((((((((((((....)-.....((((((......)))))).)))))))))...)))))))))----- ( -42.60, z-score =  -3.83, R)
>droAna3.scaffold_12916 7192754 86 + 16180835
GCUCCUCUCGUUU--GGAA----UCG--GUUGCAGGUGGCAGAA--GAAAG-AAGUUACUCCACUUAAGUGGAGUUUUCUGCCCAGUGCCUGUGUAC-----
..(((........--))).----...--...(((((((((((((--(....-.....(((((((....)))))))))))))))....))))))....----- ( -30.70, z-score =  -2.58, R)
>droPer1.super_10 420799 102 + 3432795
GCUUCUCCGCUUUUUGCAGGUAGCCAAAAAAAAAGGAAAAAUAACAGAAAGAAAGUUACUUUAUUUAAGUGGAGUUCUUGCUCCAACGCCUGCUCGAUGUCG
((......)).....((((((..((.........))..................(((((((.....))))(((((....))))))))))))))......... ( -19.70, z-score =   0.29, R)
>dp4.chr4_group4 2596166 100 + 6586962
GCUUCUCCGCUUUUUGCAGGUAGCCA--AAAAAAGGAAAAAUAAAAGAAAGAAAGUUACUUUAUUUAAGUGGAGUUCUUCCUCCAACGCCUGCUCGAUGUCG
((......)).....((((((..((.--......)).........((.(((((..((((((.....))))))..))))).)).....))))))......... ( -20.10, z-score =  -0.29, R)
>droSim1.chr2L 19485460 94 - 22036055
GCUACUUCCGUUUCCGGAAAUGGCAG--GCUGCAGGUGGCAGAGGCGAAAG-AAGUUACUCCAGUUAAGUGGAGUUUCUCUGCCGGUGUCUGUGCCU-----
((((.(((((....))))).))))((--((.(((((((((((((((....)-.....((((((......)))))).)))))))))...)))))))))----- ( -42.60, z-score =  -3.83, R)
>droSec1.super_7 3431234 94 - 3727775
GCUACUUCCGUUUCCGGAAAUGGCAG--GCUGCAGGUGGCAGAGGCGAAAG-AAGUUACUCCAGUUAAGUGGAGUUUCUCUGCCGGUGUCUGUGCCU-----
((((.(((((....))))).))))((--((.(((((((((((((((....)-.....((((((......)))))).)))))))))...)))))))))----- ( -42.60, z-score =  -3.83, R)
>droYak2.chr2R 6294937 94 - 21139217
GCUACUUCCGUUUCCGGAAAUGGCUG--GCUGCAGGUGGCAGAAGCGAAAG-AAGUUACUCCAGUUAAGUGGAGUUUCUCUGCCAGUGUCUGUGCCU-----
((((.(((((....))))).)))).(--((.((((((((((((..(....)-..(..((((((......))))))..))))))))...)))))))).----- ( -40.00, z-score =  -3.64, R)
>droEre2.scaffold_4845 18090665 93 + 22589142
GCUGCUUCCGUUUCCGGAAAUGGCUG--GCUGCAGGUGGCAGAAGCGAAAG-AAGUUACUCCAGUUAAGUGGAGUUUCUCUGCCGGUGCCUGCCCU------
(((..(((((....)))))..))).(--(..((((((((((((..(....)-..(..((((((......))))))..)))))))...)))))))).------ ( -39.40, z-score =  -2.60, R)
>consensus
GCUACUUCCGUUUCCGGAAAUGGCAG__GCUGCAGGUGGCAGAAGCGAAAG_AAGUUACUCCAGUUAAGUGGAGUUUCUCUGCCAGUGCCUGUGCCU_____
(((....((......))....))).......(((((((((.(((.............((((((......))))))..))).))))...)))))......... (-11.84 = -12.44 +   0.60)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:53:10 2011